Talks and Presentations

Slowly making a list of all my talks and presentations and posting slides / audio / video of them if available.


2014

2013

  • November 8. Phylogeny-driven approaches to genomics and metagenomics. Talk at IHU Méditerranée Infection, Marseilles, France. Video on Youtube.
  • October 3. Facilitating the Spread of Scientific Knowledge via Open Science, Invited talk for Infectious Disease Week Meeting in San Francisco, CA. Slideshare.
  • August 7. Bayesian Taxonomic Assignment for the Next-Generation Metagenomics, Department of Homeland Security Workshop on Microbial Forensics. Slideshare.
  • July 29. Phylogenetic and Phylogenomic Approaches to Studying the Dark Matter of Biology, Talk for UC Berkeley Evolution Institute.
  • May 31. All microbes, all the time.  Keynote talk for UC Davis Teen Biotech. Challenge Awards Ceremony. Slideshow with audio on Youtube. Slideshare.
  • May 24. microBEnet – the microbiology of the Built Environment network. Talk for Annual Meeting of the Sloan Foundation Program in Microbiology of the Built Environment. Slideshow w/ audio on Youtube.. Slideshare.
  • May 14. Microbiota & Microbiomes.
  • May 6. Phylogeny-Driven Approaches to Genomics and Metagenomics. Guest seminar at Fresno State University. Slideshare.
  • April 29. The Need for a Phylogeny Driven Genomic Encyclopedia of Eukaryotes. At SMBE-Eukaryotic Omics Satellite meeting at UC Davis. SlideshareSlideshow on Youtube
  • March 20. Phylogeny-Driven Approaches to Genomics and Metagenomics.  Talk for UC Davis Genome Center Faculty Meeting.
  • March 15. Microbiomes and DNA based Studies of Microbial Diversity. Talk at Singularity University. Slideshare.
  • March 8. The Human Microbiome 101.  Talk for Future of Genomic Medicine 13. Slideshare.
  • March 4. Sequencing: The Now Generation. Talk for Bodega Applied Phylogenetics Course.
  • February 2.  Science Online 2013.  Session on “Wearing multiple hats” presentation with Ed Yong.
  • January 28. DNA based Studies of Microbial Diversity. Guest Lecture for MCB182 “Principles of Genomics” at UC Davis. Slideshare.
  • January 9. Open Access Explored discussion with Jorge Cham of PHD Comics.  Announcement here.  Storify here.  Video here.

2012



2011


  • November 15.  Phylogeny driven studies for metagenomics. iPAM meeting.  Video slideshow on Youtube. Slideshare.
  • October 25. The dark matter of biology. At the 2011 Compass Summit, Los Angeles, CA. Video on ForaTV.
  • September 24. The Dark Matter of Biology. Pence Art Gallery, Davis, CA for “An Evening with the Genome Center.” Talk on Vimeo.
  • September 12. DNA and the Hidden World of Microbes. CLIMB Symposium, UC Davis, Davis, CA. Slideshare.  Video with Audio on SciVee.  Slideshow on Youtube.
  • July 9. Phylogenomics and the Diversification of Microbes. At “Microbial Diversity Course Symposium on Microbial Genomics”, Marine Biological Lab, Woods Hole, MA. Slideshare.
  • June 29. The dark matter of the biological universe. Invited Talk at the National Institutes of Medicine Forum on Microbial Threats, Washington DC.
  • June 21. Social media and personal genomics – web conference. Next generation sequencing conference.
  • June 15. Open access and open science. Talk plus Roundtable Discussion on Education and Synthetic Biology, Synthetic Biology 5.0 Conference, Stanford, CA. Video on Vimeo. Slideshare.
  • June 9. Molecular studies of microbial ecology. Keynote talk at Indoor Air 2011 Conference workshop on “Microbiology of the Built Environment”, Austin, TX. Slideshare slidecast with audio.  Second attempt at Slidecast.
  • May 20. Bioinformatics for Microbial Forensics. Presented to the White House Working Group on Microbial Forensics, White House Conference Center, Washington DC.
  • May 9. The Deal with Carbon: How Earth’s Mighty Microbes Respond. Lesher Center for the Arts, Walnut Creek, CA. Video of talk on Youtube.
  • April 21. Phylogenomics. C-DEBI Workshop of Evolution and the Deep Subsurface.
  • April 13. Ben Franklin, Bioinformatics, Boston, Birthdays, and me.   BioIT World, Boston, MA. Video on Youtube. Slideshare.
  • March 28. Phylogenetic Approaches to Metagenomic Analysis. Talk at Keystone Symposium on ‘Microbial Communities as Drivers of Ecosystem Complexity’. Slideshare.
  • March 10. Searching for the fourth domain. Scientific seminar series at the DOE Joint Genome Institute.
  • March 7. Phylogenomics.  Talk for UC Davis Applied Phylogenetics Course at Bodega Marine Lab. Slideshare.
  • March 2. Data management workshop.  Video part 1 on Vimeo.  Video part 2 on Vimeo. 
  • February 28. Phylogenomics and the Diversification of Microbes. Invited seminar speaker, Computational Biology Program, UCLA, Los Angeles, CA.
  • February 17. Phylogenomics and the Diversification of Microbes. Invited seminar for Graduate Program in Bioinformatics (Student selected speaker), UCSF Mission Bay. Slideshare with Embedded Audio Slidecast.
  • February 11. Phylogenomics and the Diversification of Microbes.  Talk at UC Davis. Slideshare.
  • February 3. Phylogenomics and the Diversification of Microbes, Guest seminar for Integrative Biology program, UC Berkeley. Slideshare with Embedded Audio Slidecast.
  • January 27. Phylogenomics. Guest seminar for Biochemistry and Molecular Biology Seminar Series, Genentech, SF. Slideshare.
  • January 19. A phylogeny driven genomic encyclopedia of bacteria and archaea. Guest seminar for Biology Department, UCSD, San Diego, CA.
  • January 18. A phylogeny driven genomic encyclopedia of bacteria and archaea. Invited seminar, J. Craig Venter Institute. Slideshare.

2010


  • December 16. Phylogenomics and the Diversity and Diversification of Microbes, California Academy of Sciences, San Francisco, CA. Slideshare.
  • December 16. DNA sequencing and the modern revolution in studies of microbial diversity, California Academy of Sciences, San Francisco, CA. Slideshare.
  • October 21.  What is Open Access Publishing.  Talk at UC Davis for Open Access Week.  Available at Archive.Org. Youtube.
  • September 17. A phylogeny driven genomic encyclopedia of bacteria and archaea. Lake Arrowhead Microbial Genomes Meeting. Slideshare.
  • September 1. A phylogeny driven genomic encyclopedia of bacteria and archaea. Human Microbiome Project Meeting, St. Louis, MO. Slideshare.
  • August 11. A personal perspective on Open Access publishing. Clinical and Translational Sciences Center.  Slideshare.
  • July 18. A genomic encyclopedia of bacteria and archaea, ICiS Workshop:Computational Methods and Terabase Metagenomics, Snowbird, UT.
  • June 28. Phylogenomics of microbes: the dark matter of biology, Keynote Talk, iEVOBIO, Portland Oregon. Slideshare.
  • May 25. A phylogeny driven genomic encyclopedia of bacteria and archaea.  Talk for ASM2012 meeting in Boston. Slideshare with Audio Slidecast.
  • April 25.  A phylogeny driven genomic encyclopedia of bacteria and archaea. Talk at ASBMB 2012.   Slideshare with audio Slidecast.
  • April 17. Phylogenomics of Archaea and Bacteria, Stanford University “Evolution and Genomics” Symposium. Slideshare.
  • January. Open Access. Discussion at Science Online 2012  Slideshare.

2009


  • November 4. Phylogenomics and the origin of novelty in microbes, Invited Talk, UC Irvine, Seminar Series in Evolutionary Biology, Irvine, CA.
  • October 27. A genomic encyclopedia of bacteria and archaea.  JGI All Hands Meeting. Slideshare.
  • October 3. Microbial genomes, California Academy of Sciences Bioforum, San Francisco, CA. Partial recording on ForaTV. Discussion panel video.
  • October 2. A phylogeny driven genomic encyclopedia of bacteria and archaea, National Academy of Sciences “Microbes and Health” meeting, Irvine, CA.
  • August 11.  Seeking out the dark matter of the biological universe and the need for a phylogeny driven genomic encyclopedia. Keynote Talk, Computational Systems and Bioinformatics Meeting, Stanford, CA. Slideshare.
  • June 18. A phylogenomic encyclopedia of bacteria and archaea, Invited Speaker, CIFAR Integrated Microbial Biodiversity Workshop, Asilomar, CA.
  • May 21. The 1$ Bacterial Genome: Informatics, GEBA and Me, Invited talk at American Society for Microbiology 109th General Meeting, Philadelphia, PA. Slideshare.
  • May 19. Comparative genomics of halophilic archaea, a model for science and education. Invited talk at Roche Genome Sequencing Workshop at the American Society for Microbiology 109th General Meeting, Philadelphia, PA.
  • May 18. Panel Discussion on Open Science.  At American Society for Microbiology General Meeting, Philadelphia, PA.
  • March 27. A genomic encyclopedia of bacteria and archaea. Invited talk, JGI User Meeting, Walnut Creek, CA. Slideshare.
  • February 23. Evolutionary biology is a valuable and practical tool. Invited Public Lecture, Darwin Day Celebration at The Varsity Theater, Davis, CA.
  • February 5. Phylogenomics and the origin of novelty in microbes (and a bonus birthday present for Darwin. Invited Talk, UC Davis Ecology and Evolution Seminar Series.
  • February 4. Phylogenomics of host-microbe interactions. Invited talk for the UC Davis Medical School Basic Science Council Meeting.

2008


  • November 5. A genomic encyclopedia of bacteria and archaea. Keynote speaker, International Metagenomics Conference, San Diego, CA.
  • September 16. A Genomic Encyclopedia of Bacteria and Archaea. Invited talk, Small Genome Meeting, Lake Arrowhead, CA. Slideshare.
  • August 7. Open Access Publishing, Biomedical Research Integrity program for University of Washington School of Medicine. Video on Youtube.
  • June 4. Genomic Evolvability and the Origin of Novelty. ASM Division R Lecture. Slideshare.
  • May 22. Phylogneomics and the origin of novelty. Invited Talk, Institute of Medicine, Forum on Microbial Threats’ Microbial Evolution workshop.
  • April 22. Phylogenomics and the origin of novelty in microbes. Invited Talk, LBL Genomic Sciences Symposium Series, Berkeley, CA.
  • February. A genomic encyclopedia of bacteria and archaea. International AGBT Meeting, Marco Island, FL.

2007


  • October. Genomics as a tool in studying the evolution and diversity of the small things that run the planet. Invited seminar, Bay Area Biosystematists, California Academy of Sciences.
  • October 9. A genomic encyclopedia of bacteria and archaea, Plenary session presentation, Genomes, Medicine and the Environment Conference, San Diego, CA. Video on Youtube.
  • August. The Human Microbiome. SciFoo Camp, Mountain View, CA. Slideshare.
  • July. Bioinformatics for Metagenomics, Chair of breakout session, International Metagenomics Conference III: UCSD.
  • May ??. A genomic encyclopedia of bacteria and archaea, Invited seminar, American Academy of Microbiology Workshop.
  • May 4. Phylogenomics and the diversification of microbes. Chico State University.
  • April 13. A genomic encyclopedia for bacteria and archaea. Invited seminar, California Metagenomics Meeting, Moore Foundation.
  • March 28. Phylogenomics and the origin of novelty in microbes. Invited seminar., JGI User Meeting.
  • March 27. A genomic encyclopedia for bacteria and archaea. JGI Lab Sequencing Program Meeting.
  • February 28. Phylogenomics and the diversification of microbes. Invited seminar, U. C. Berkeley Microbiology Seminar Series.
  • March 8-9. A genomic encyclopedia for bacteria and archaea. At Bergey’s Planning Meeting to discuss sequencing genomes of all described organisms. University of Georgia.
  • January XX. A genomic encyclopedia of bacteria and archaea. JGI Policy Board Meeting.
  • January 22. Phylogenomic studies of microbial symbioses. U. C. Davis, Plant Pathology Seminar Series.
  • January 17. The more the merrier: genomics of single, double and polysymbioses. Invited talk.  Host microbe interaction workshop at the Plant and Animal Genomics Meeting, San Diego, CA.

2006



2005



2004


  • 12/13-12/15 DARPA Radiation Protection Workshop: Extremophiles, genomics and DNA repair
  • September.  The Axis of Evol and the Phylogenomics of Microbes. Talk at Lake Arrowhead Microbial Genomes Meeting. Slideshare.
  • 4/17/04 “Phylogenomics and the Axis of Evol” Microbial Sciences Symposium, Harvard.
  • February 11, Phylogenomic Analysis of DNA Repair and Recombination Processes, Keystone Meeting on Bacterial Chromosomes, Santa Fe, NM.

2002


  • September.  Phylogenomics of Microbes. Talk at Lake Arrowhead Microbial Genomes Meeting. Slideshare.
  • February 20. Feedback loops between genomics and evolutionary analysis and why every genome center needs an evolutionary biologist. Invited seminar.  Duke University.

2001


  • November, Invited talk, American Society for Space and Gravitational Biology, Alexandria, VA.
  • October, Invited talk, University of Pennsylvania Genome Center, Philadelphia, PA.
  • October, Invited talk, DNA Repair and Related Transactions, Fallen Leaf Lake, CA.
  • September, Invited talk, Systematics Association Biennial Meeting, London, UK.
  • July, Invited talk, Gordon Conference on Microbial Population Biology, Williams, MA.
  • March, Invited talk, Society of General Microbiology, General Meeting, Edinburgh, UK.
  • January, Invited talk, International Symposium on Extremophile Genomics, Tokyo, Japan.

2000


  • February, Invited talk, “Biotechnology: The Science and the Impact”, The Hague, The Netherlands.
    • Transcript available here.
  • February, Invited talk, TIGR Microbial Genomes Meeting, Chantilly, VA.
  • April, Invited talk, North Carolina State Genomic Sciences Symposium, Raleigh, NC.
  • June, Invited talk, Environmental Molecular Sciences Laboratory Users Symposium, Hanford, WA.
  • July, Invited talk, Australian American Leadership Dialogue, Washington, DC.
  • September. Phylogenomics of DNA repair.  Invited talk, International Small Genomes Conference, Lake Arrowhead, CA. Slideshare.
  • September, Invited talk, TIGR Genome Sequencing and Analysis Conference, Miami, FL.
  • October, Invited talk, Canadian Institute for Advanced Research Evolution Subsection Annual Meeting, Digby, Nova Scotia.
  • December, Invited talk, University of Maryland, Department of Biology, College Park, MD.

1999


  • November, Invited talk, Beyond the Identification of Transcribed Sequences Workshop, Chantilly, VA.January, Microbial genome sequencing, Keystone Symposium on Archaea, Taos, NM.
  • October, Invited talk, ASM Conference on DNA Repair, Hilton Head, SC.
  • September, Invited talk, TIGR Genome Sequencing and Analysis Conference, Miami, FL.
  • August, Invited talk, IUMS Annual Meeting, Sydney Australia.
  • July, Invited talk, John Hopkins University Department of Chemical Engineering.
  • May 27. Evolutionary perspectives of genome analysis. Stanford University Genomic Sciences Seminar Series, Stanford, CA.
  • May, Invited talk, National Institutes of Health, Section on DNA Repair, Bethesda, MD.
  • April 7. Combining evolutionary analysis and genomics into a composite phylogenomic analysis: a case study of DNA repair processes. Invited Talk, Center for Marine Biotechnology, Baltimore, MD.
  • February, Invigted talk, TIGR Microbial Genomes Meeting, Chantilly, VA.
  • February, Phylogenomics of DNA repair processes, Gordon Conference on Mammalian DNA Repair, Ventura, CA.

1998


  • October. Phylogenomics: Improving Functional Predictions for Genes Using Evolutionary Analysis. Beyond the Identification of Transcribed Sequences.
  • May. Phylogenomics: Improving Functional Predictions for Genes using Evolutionary Analysis. At The Biology of Genomes, Cold Sping Harbor Lab.

1997


  • October 14-24. NATO Advanced Study Institute on “DNA Damage and Repair”, Tekirova, Turkey.

1996


  • November, The evolution of the RecA protein in bacteria: from systematics to structure. At CALPEG.

1995


  • July.  Evolution of the RecA protein: From Systematics to Structure. CALPEG. Slideshare.
  • May. RecA as a model molecule for molecular systematic studies of bacteria. At the Society for the Study of Evolution (SSE) Meeting. Montreal, Canada.

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